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Zinc in PDB 7bzi: The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.

Enzymatic activity of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.

All present enzymatic activity of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.:
3.5.2.6;

Protein crystallography data

The structure of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination., PDB code: 7bzi was solved by Y.S.Park, L.W.Kang, J.H.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.04 / 1.94
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 121.38, 83.057, 163.581, 90, 110.69, 90
R / Rfree (%) 21 / 25.5

Zinc Binding Sites:

The binding sites of Zinc atom in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. (pdb code 7bzi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination., PDB code: 7bzi:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 7bzi

Go back to Zinc Binding Sites List in 7bzi
Zinc binding site 1 out of 8 in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn401

b:25.4
occ:1.00
 NE2 G:HIS96 1.8 16.4 1.0
OD2 G:ASP210 2.1 31.2 1.0
NE2 G:HIS279 2.1 25.4 1.0
O G:HOH600 2.3 22.5 1.0
OD1 G:ASP210 2.5 30.4 1.0
CG G:ASP210 2.6 33.8 1.0
CE1 G:HIS96 2.7 17.9 1.0
CD2 G:HIS96 2.8 19.4 1.0
CD2 G:HIS279 3.0 23.9 1.0
CE1 G:HIS279 3.1 29.5 1.0
ND1 G:HIS96 3.9 19.7 1.0
OD2 G:ASP95 3.9 28.0 1.0
CG G:HIS96 3.9 19.0 1.0
CB G:ASP210 4.1 31.8 1.0
CG G:HIS279 4.1 23.6 1.0
OD1 G:ASP95 4.2 30.1 1.0
ND1 G:HIS279 4.2 27.3 1.0
CG G:ASP95 4.3 27.6 1.0
O G:HOH571 4.5 26.2 1.0
ND1 G:HIS93 4.6 25.4 1.0
O G:HOH590 4.6 34.4 1.0

Zinc binding site 2 out of 8 in 7bzi

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Zinc binding site 2 out of 8 in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:23.4
occ:1.00
 NE2 B:HIS96 1.8 14.4 1.0
OD2 B:ASP210 2.0 29.2 1.0
NE2 B:HIS279 2.0 25.9 1.0
O B:HOH620 2.3 29.7 1.0
CG B:ASP210 2.6 29.1 1.0
OD1 B:ASP210 2.7 25.4 1.0
CD2 B:HIS96 2.8 16.6 1.0
CE1 B:HIS96 2.8 16.2 1.0
CE1 B:HIS279 2.9 26.6 1.0
CD2 B:HIS279 3.1 24.5 1.0
OD2 B:ASP95 3.8 31.8 1.0
ND1 B:HIS96 3.9 17.2 1.0
CG B:HIS96 3.9 16.8 1.0
ND1 B:HIS279 4.0 25.8 1.0
OD1 B:ASP95 4.1 32.7 1.0
CB B:ASP210 4.1 29.7 1.0
O B:HOH585 4.2 25.3 1.0
CG B:HIS279 4.2 23.9 1.0
CG B:ASP95 4.3 28.7 1.0
ND1 B:HIS93 4.4 25.5 1.0
O B:HOH514 4.5 30.5 1.0
O B:HOH569 4.5 38.9 1.0
CE1 B:HIS93 5.0 24.4 1.0

Zinc binding site 3 out of 8 in 7bzi

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Zinc binding site 3 out of 8 in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:20.5
occ:1.00
 O C:HOH536 1.8 17.5 1.0
NE2 C:HIS279 1.9 20.5 1.0
OD2 C:ASP210 2.0 26.4 1.0
NE2 C:HIS96 2.1 16.0 1.0
CG C:ASP210 2.6 25.8 1.0
OD1 C:ASP210 2.7 25.1 1.0
CE1 C:HIS279 2.9 22.0 1.0
CD2 C:HIS96 2.9 15.9 1.0
CD2 C:HIS279 3.0 21.4 1.0
CE1 C:HIS96 3.2 15.4 1.0
OD2 C:ASP95 3.8 25.9 1.0
ND1 C:HIS279 4.0 23.4 1.0
CG C:HIS279 4.1 22.1 1.0
O C:HOH687 4.1 24.2 1.0
CB C:ASP210 4.1 25.3 1.0
CG C:HIS96 4.1 15.0 1.0
O C:HOH669 4.2 42.6 1.0
ND1 C:HIS96 4.2 15.7 1.0
OD1 C:ASP95 4.4 22.3 1.0
CG C:ASP95 4.4 22.2 1.0
ND1 C:HIS93 4.7 21.8 1.0
O C:HOH588 4.7 25.6 1.0

Zinc binding site 4 out of 8 in 7bzi

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Zinc binding site 4 out of 8 in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn401

b:18.2
occ:1.00
 NE2 F:HIS279 1.9 16.9 1.0
O F:HOH573 2.0 14.9 1.0
NE2 F:HIS96 2.1 14.9 1.0
OD2 F:ASP210 2.1 31.2 1.0
OD1 F:ASP210 2.4 26.8 1.0
CG F:ASP210 2.6 27.8 1.0
CE1 F:HIS279 2.7 17.7 1.0
CD2 F:HIS96 3.0 14.8 1.0
CD2 F:HIS279 3.0 17.9 1.0
CE1 F:HIS96 3.2 15.0 1.0
OD2 F:ASP95 3.8 23.3 1.0
ND1 F:HIS279 3.9 18.4 1.0
CB F:ASP210 4.0 26.7 1.0
CG F:HIS279 4.1 17.9 1.0
CG F:HIS96 4.2 14.2 1.0
OD1 F:ASP95 4.2 20.0 1.0
O F:HOH684 4.2 18.4 1.0
ND1 F:HIS96 4.3 14.7 1.0
CG F:ASP95 4.3 19.9 1.0
O F:HOH562 4.3 35.8 1.0
ND1 F:HIS93 4.6 23.9 1.0
O F:HOH574 4.7 21.1 1.0

Zinc binding site 5 out of 8 in 7bzi

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Zinc binding site 5 out of 8 in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn401

b:20.3
occ:1.00
 OD2 E:ASP210 2.0 23.2 1.0
NE2 E:HIS279 2.0 19.2 1.0
NE2 E:HIS96 2.1 16.1 1.0
O E:HOH530 2.1 17.4 1.0
OD1 E:ASP210 2.5 22.8 1.0
CG E:ASP210 2.5 24.6 1.0
CD2 E:HIS96 2.8 16.2 1.0
CE1 E:HIS279 3.0 20.8 1.0
CD2 E:HIS279 3.1 19.6 1.0
CE1 E:HIS96 3.2 17.3 1.0
OD2 E:ASP95 3.5 31.8 1.0
CG E:HIS96 4.0 16.6 1.0
CB E:ASP210 4.0 25.4 1.0
ND1 E:HIS279 4.1 19.6 1.0
ND1 E:HIS96 4.2 17.7 1.0
CG E:HIS279 4.2 18.9 1.0
CG E:ASP95 4.2 27.4 1.0
O E:HOH636 4.3 24.6 1.0
ND1 E:HIS93 4.4 19.1 1.0
OD1 E:ASP95 4.4 32.2 1.0
O E:HOH640 4.5 24.2 1.0
O E:HOH554 4.9 92.2 1.0
OH E:TYR278 4.9 24.4 1.0
CE1 E:HIS93 5.0 18.9 1.0

Zinc binding site 6 out of 8 in 7bzi

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Zinc binding site 6 out of 8 in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn401

b:22.2
occ:1.00
 OD2 D:ASP210 1.9 21.3 1.0
O D:HOH537 2.0 15.9 1.0
NE2 D:HIS96 2.1 18.6 1.0
NE2 D:HIS279 2.1 18.9 1.0
CG D:ASP210 2.5 23.7 1.0
OD1 D:ASP210 2.6 21.5 1.0
CD2 D:HIS96 2.9 19.5 1.0
CE1 D:HIS279 3.1 20.2 1.0
CD2 D:HIS279 3.1 19.5 1.0
CE1 D:HIS96 3.1 21.4 1.0
OD2 D:ASP95 3.6 27.9 1.0
CB D:ASP210 4.0 25.1 1.0
CG D:HIS96 4.1 20.3 1.0
ND1 D:HIS279 4.2 20.6 1.0
ND1 D:HIS96 4.2 20.8 1.0
CG D:HIS279 4.2 19.4 1.0
O D:HOH644 4.3 23.7 1.0
CG D:ASP95 4.3 25.3 1.0
O D:HOH646 4.4 48.3 1.0
ND1 D:HIS93 4.4 20.3 1.0
OD1 D:ASP95 4.4 27.0 1.0
O D:HOH626 4.7 30.4 1.0

Zinc binding site 7 out of 8 in 7bzi

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Zinc binding site 7 out of 8 in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:19.0
occ:1.00
 OD2 A:ASP210 1.8 26.2 1.0
NE2 A:HIS96 2.0 13.4 1.0
NE2 A:HIS279 2.0 20.2 1.0
O A:HOH571 2.1 14.4 1.0
CG A:ASP210 2.5 25.6 1.0
OD1 A:ASP210 2.6 23.3 1.0
CE1 A:HIS279 2.8 21.0 1.0
CD2 A:HIS96 2.9 14.2 1.0
CD2 A:HIS279 3.1 20.7 1.0
CE1 A:HIS96 3.1 14.3 1.0
OD2 A:ASP95 3.4 24.7 1.0
CB A:ASP210 4.0 25.8 1.0
ND1 A:HIS279 4.0 21.0 1.0
CG A:HIS96 4.1 13.7 1.0
CG A:HIS279 4.1 19.8 1.0
ND1 A:HIS96 4.1 13.6 1.0
O A:HOH626 4.1 37.9 1.0
CG A:ASP95 4.2 23.3 1.0
O A:HOH632 4.3 23.6 1.0
OD1 A:ASP95 4.4 26.5 1.0
O A:HOH623 4.4 26.6 1.0
ND1 A:HIS93 4.6 24.6 1.0

Zinc binding site 8 out of 8 in 7bzi

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Zinc binding site 8 out of 8 in the The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of The Mutant Variant of Pngm-1. H91 Was Substituted For Alanine to Study Metal Coordination. within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn401

b:21.4
occ:1.00
 OD2 H:ASP210 1.8 26.3 1.0
O H:HOH515 1.9 16.8 1.0
NE2 H:HIS96 2.0 15.9 1.0
NE2 H:HIS279 2.0 19.7 1.0
CG H:ASP210 2.6 26.1 1.0
OD1 H:ASP210 2.8 27.8 1.0
CE1 H:HIS279 2.9 21.4 1.0
CD2 H:HIS96 2.9 16.5 1.0
CE1 H:HIS96 3.0 16.7 1.0
CD2 H:HIS279 3.1 20.8 1.0
OD2 H:ASP95 3.4 26.8 1.0
CB H:ASP210 4.0 27.0 1.0
ND1 H:HIS279 4.0 21.2 1.0
CG H:ASP95 4.1 23.6 1.0
OD1 H:ASP95 4.1 26.9 1.0
ND1 H:HIS96 4.1 16.5 1.0
CG H:HIS96 4.1 16.0 1.0
O H:HOH613 4.1 27.6 1.0
CG H:HIS279 4.1 19.5 1.0
O H:HOH587 4.2 38.9 1.0
ND1 H:HIS93 4.6 22.3 1.0
O H:HOH612 4.6 39.5 1.0

Reference:

Y.S.Park, L.W.Kang, J.H.Lee. Structural Study of Metal Binding and Coordination of Ancient Metallo Beta Lactamase Pngm 1 Variants To Be Published.
Page generated: Tue Oct 29 17:54:36 2024

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